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Uses of Package de.hu.berlin.wbi.objects (snp-normalizer)
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<B>Uses of Package<br>de.hu.berlin.wbi.objects</B></H2>
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Packages that use <A HREF="../../../../../de/hu/berlin/wbi/objects/package-summary.html">de.hu.berlin.wbi.objects</A></FONT></TH>
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<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><A HREF="#de.hu.berlin.wbi.objects"><B>de.hu.berlin.wbi.objects</B></A></TD>
<TD>Package with the main data objects.&nbsp;</TD>
</TR>
<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><A HREF="#de.hu.berlin.wbi.psb"><B>de.hu.berlin.wbi.psb</B></A></TD>
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<P>
<A NAME="de.hu.berlin.wbi.objects"><!-- --></A>
<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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Classes in <A HREF="../../../../../de/hu/berlin/wbi/objects/package-summary.html">de.hu.berlin.wbi.objects</A> used by <A HREF="../../../../../de/hu/berlin/wbi/objects/package-summary.html">de.hu.berlin.wbi.objects</A></FONT></TH>
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<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/DatabaseConnection.html#de.hu.berlin.wbi.objects"><B>DatabaseConnection</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Convenience class for database communication</TD>
</TR>
<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/dbSNP.html#de.hu.berlin.wbi.objects"><B>dbSNP</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Represents a <a href="http://www.ncbi.nlm.nih.gov/projects/SNP/">dbSNP</a>
 entry; loaded from a local database.</TD>
</TR>
<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/dbSNPNormalized.html#de.hu.berlin.wbi.objects"><B>dbSNPNormalized</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Represents a <CODE>Mutation</CODE> mention which has been successfully
 normalized to a <A HREF="../../../../../de/hu/berlin/wbi/objects/dbSNP.html" title="class in de.hu.berlin.wbi.objects"><CODE>dbSNP</CODE></A> .</TD>
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<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/EntityOffset.html#de.hu.berlin.wbi.objects"><B>EntityOffset</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Represents the text span of entity mentions (<CODE>Mutation</CODE>, <A HREF="../../../../../de/hu/berlin/wbi/objects/Gene.html" title="class in de.hu.berlin.wbi.objects"><CODE>Gene</CODE></A>, etc.).</TD>
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<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/Gene.html#de.hu.berlin.wbi.objects"><B>Gene</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Represents a gene mention found by any Named Enttiy Recognition and Normalization tool.</TD>
</TR>
<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/HGVS.html#de.hu.berlin.wbi.objects"><B>HGVS</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Represents a <a href="http://www.hgvs.org/">HGVS</a> reference, like <tt>NR_027062.1:c.157+25766C>T</tt>.</TD>
</TR>
<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/MutationMention.html#de.hu.berlin.wbi.objects"><B>MutationMention</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Class to represent a mutation mention found by an NER tool like 
 MutationFinder or SETH</TD>
</TR>
<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/MutationValidation.html#de.hu.berlin.wbi.objects"><B>MutationValidation</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;This object represents a <CODE>Mutation</CODE> from the validation corpus, where
 we already know which <A HREF="../../../../../de/hu/berlin/wbi/objects/dbSNP.html" title="class in de.hu.berlin.wbi.objects"><CODE>dbSNP</CODE></A> entry is associated with this gene.</TD>
</TR>
<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/UniprotFeature.html#de.hu.berlin.wbi.objects"><B>UniprotFeature</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Represents a <a href="../../../../../de/hu/berlin/wbi/objects/www.uniprot.org/">UniProt</a>
 entry; loaded from database.</TD>
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&nbsp;
<P>
<A NAME="de.hu.berlin.wbi.psb"><!-- --></A>
<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
<TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
Classes in <A HREF="../../../../../de/hu/berlin/wbi/objects/package-summary.html">de.hu.berlin.wbi.objects</A> used by <A HREF="../../../../../de/hu/berlin/wbi/psb/package-summary.html">de.hu.berlin.wbi.psb</A></FONT></TH>
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<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/Gene.html#de.hu.berlin.wbi.psb"><B>Gene</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Represents a gene mention found by any Named Enttiy Recognition and Normalization tool.</TD>
</TR>
<TR BGCOLOR="white" CLASS="TableRowColor">
<TD><B><A HREF="../../../../../de/hu/berlin/wbi/objects/class-use/MutationMention.html#de.hu.berlin.wbi.psb"><B>MutationMention</B></A></B>

<BR>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Class to represent a mutation mention found by an NER tool like 
 MutationFinder or SETH</TD>
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